Locus 609

Sequence ID X_DroMel_CAF1
Location 1,684,515 – 1,684,629
Length 114
Max. P 0.836524
window985

overview

Window 5

Location 1,684,515 – 1,684,629
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 85.21
Mean single sequence MFE -39.50
Consensus MFE -28.31
Energy contribution -30.75
Covariance contribution 2.44
Combinations/Pair 1.08
Mean z-score -2.01
Structure conservation index 0.72
SVM decision value 0.73
SVM RNA-class probability 0.836524
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1684515 114 - 22224390
CGUGUGCACUCUAAUCGGUCACAGAGAAGGAGAGUGC--GCGAUUUGCGGCAAGAGCGACGUCCCUGUGGUACGAGUA----UGCAUAUAUGUAUAGCACAUGCCGCUUAGCGAAAGUGA
..((((((((((..((.......)).....)))))))--)))....((((((.(.((..(((((....)).)))..((----((((....)))))))).).))))))...((....)).. ( -40.00)
>DroSec_CAF1 24850 116 - 1
CGUGUGCACUCUAAUCGGUCACAGAGAAGGAGAGUGC--GCGAUUUGCGGCAA--GCGACGUCCGUGUGGUACGAGUAGACGUACAUAUAUGUAUAGCAAAUGCCGCUCAGCGAAAGUGA
..((((((((((..((.......)).....)))))))--)))....((((((.--((...((.(((((((((((......))))).)))))).)).))...))))))...((....)).. ( -40.60)
>DroSim_CAF1 18677 118 - 1
CGUGUGCACUCUAAUGGGGCACAGAGAAGGAGAGUGC--GCGAUUUGCGGCAAGAGCGACGUCCGUGUGGUACGAGUAGACGUACAUAUAUGUAUAGCACAUGCCGCUCAGCGAAAGUGA
..((((((((((..((.....)).......)))))))--)))....((((((.(.((...((.(((((((((((......))))).)))))).)).)).).))))))...((....)).. ( -41.50)
>DroYak_CAF1 18140 102 - 1
CGUGUGCACUUUAAUCGGUCACAGCGACAGAGAGUGUAUGCGAUUUGCGGCAAGAGCGACGUCCGUGUGGU------------------AUAUAUAGCACAUGCCGCUCAGCGAAAGUGA
((((((((((((.....(((.....)))..))))))))))))....((((((...(((.....)))(((.(------------------(....)).))).))))))...((....)).. ( -35.90)
>consensus
CGUGUGCACUCUAAUCGGUCACAGAGAAGGAGAGUGC__GCGAUUUGCGGCAAGAGCGACGUCCGUGUGGUACGAGUA____UACAUAUAUGUAUAGCACAUGCCGCUCAGCGAAAGUGA
(((..(((((((..((.........))...)))))))..)))....((((((.(.((...((.(((((((((((......))))).)))))).)).)).).))))))...((....)).. (-28.31 = -30.75 +   2.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:19 2006